[FieldTrip] segmented volume not aligned with individual mri

[Frederic Roux]

Dear all,

I am trying to create mni-aligned grids in individual head-space
and have followed the code provided in the corresponding example-script 
on the fieldtrip site to the line.

However when I plot the segmented volume it looks as if something
is going wrong. I am attaching the plots of the gray and white matter,
as well as of the csf.

I tried flipping the dimensions as suggested in the example script, however
this had zero effect.

My code looks like this.

addpath('/data/common/FieldtripCurrent/fieldtrip-20120105/');
ft_defaults;

mri = ft_read_mri([path2files,'ID_V2.mri']);

cfg = [];
cfg.coordsys = 'ctf';
cfg.downsample = 2;
seg = ft_volumesegment(cfg,mri);

seg.transform = mri.transform;
seg.anatomy = mri.anatomy;

figure;
cfg = [];
ft_sourceplot(cfg,seg);
figure;
cfg = [];
cfg.funparameter = 'gray';

ft_sourceplot(cfg,seg);

figure;

cfg = [];

cfg.funparameter = 'white';


ft_sourceplot(cfg,seg);


figure;

cfg = [];

cfg.funparameter = 'csf';


ft_sourceplot(cfg,seg);



Anybody an idea why this is happening?
Any help would be highly appreciated.

Fred
-- 
Frédéric Roux, PhD student
Department of Neurophysiology
Max Planck Institute for Brain Research
D-60529 Frankfurt am Main
Frederic.Roux at brain.mpg.de
+49(0)69630183225


 		 	   		  
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